MmuINT0131768 @ mm10
Intron Retention
Gene
ENSMUSG00000041992 | Rapgef5
Description
Rap guanine nucleotide exchange factor (GEF) 5 [Source:MGI Symbol;Acc:MGI:2444365]
Coordinates
chr12:117719119-117721391:+
Coord C1 exon
chr12:117719119-117719197
Coord A exon
chr12:117719198-117721241
Coord C2 exon
chr12:117721242-117721391
Length
2044 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
TGTTCTTTTGACCTCTGCAGTTT
3' ss Score
8.84
Exon sequences
Seq C1 exon
AATAAAGCCCTTTTCCACCAATTCAGTCTTAAGGAGAACTGGCTCCAGCACAGAGGAACTGTGGCAGAAACAGAGGAAA
Seq A exon
GTGAGTAGCCTTGTACAAGAGTCGCCTCCTCCTACAGATCACATCCTGCCTGCAACTGTCACTTCTGGAAGTCATTCCTCTTTGACTAGAATGCTAATATCAAATATTAGCATGGCTTTTCTTCCTTGGTTTGGTTGTTAAGGTTTGTTTAGATAATGCAGTGTTCTTTCAAAGACCATGAATATTCTAAATTTGGGAAGCAAGAACAGGGATATATATGCACAGAGCACTCCAGTGTTCTGCAGTGCAGATTCAAAAGATGCTGCAAACCAGCTTTTTCTTCCTTAAACCATCACTCTAGATGCCCCATTGTCCAGGTTTGACCTGAAGGGCCACCAAAGCCAGTGTGTAGAGCCTTAGCTAAGTCAGTCCCTGAGACTTAGAAAAGATAATAGAAAAAGAGGATAGGTGTGGGAGAAGTTCCTCAGCCTGCCACTTTCCCAGAGTGTACATGACAGAGTCAGTGCTTAGGACTCCTATCAGCCCACGGAGGCTGGGCATTCACCAAGCATGAGTGGAAAGTCCTTGTTAGCAACCTGCATGTGCTAGTGTTCTTTGTTACTGCAGAGTGAGTGGCAGCAGAGGTTCCTTGTCTGGGCAAAGACTGAGGGAATGGCAGGAGAGACGGGGAAGTAAAATACTCTTGAGAAAGTTCCCACACACCTTTCTCTACACACTAAACTTCAGCGTGTCAAGGCTTTCTGTTCAGCATTTTGAACAGTTCCAAAATAAAGCGTCTTAGTTTATTCTGTTGTGTGGCACTTTGTCTGATGGCTCTGGCCAAAAGGTTTCTGTTGTCTCGTGTTAACTGTCATCTGCCCCAAATGAAAGAGCAAATGCAATTACCTTACCTCCTGATTTGTTAATCGCTGACCTTCCTTGTCCATTTCTCCTATAATTTAATTGTAGAGTTTGCTAAGCTGAGCTTCAAAGAGGCTCAGTATTGCAAGGCCCTCCGGCCTCTCCCTATTTGTCAGTTTATTAAGCAAGGATAAACTCAGCCTCTATTTAGTAGTTGATAGACTGGATCTTTGTTCAGAGTCTCCACTTTGAGCAACCTAACCCAAGCAAAGACTGTCAAGTGCCTGGTGCAGGGACTGTGTTTGCTTGCATTCAGTGGCAGCAGCCCATTCTCTTGCTTTGCTGCCTTTGCATGTCTGGAAATTATCCCTGGGTTTAGTTCAGTGATGCTATTTAAATAGAATGTAAAATTCTCTAAAAGCCATAACCCCCCTGCTTATCATTGAGGAAGTATAGAGCACACACTATCTAAGTACATCATTGCCCTGTTTAGTCTAAAGGACCTAGCATTTATAGGCTAAGGGAAGGTGTTGTAAGAAGTAGCATGCCACAGTGATGTTCATTGCTATTAAAACTATCTCTCCTATGCAAATCGTGAAGAAAATGTTTTTCCAGGATCCATTTACCCCGACAGTGATAATACTCTACTAATCATTAATAGCACTGCAAATAAAAAAAAATTAAAGGTTAGAAACATGGCCTCCATTTAAAAACCCATCATCACTTTGATAAGAGTCAGGACTGGAGGCTCATTCTTAAATGACTGAGAGGGTTGCACATCAACGCCAAGGCAAATGACATACTTTCAGGTAAACATGAGAATTCTAATAGCAAGTGTGCAGTTCTTGATTGGGCCACTGAGACTGTCCTGAAGCAGAGTGTAAAATAAAAATTTATATGCTAGACATTTTAATATAGTGCTTTAGGAGTTCTTAGCAACTCTCAGAGGAGGAGTTCAAAAGTACAGTCTGTGGAGCGTGGTCTCCAGTGTCTTCTAGCAGAGAGTCTATCACAAGAACGATATGGTGTAACCAAGGGATTCCTTGCAGTATGGGAAGCCAGTCAGCTGCTCCTGCATGGTCACTGGCCTCCTGTCTTTGCAAGCATATGCTGGCAGGCTGGACTCTCACATACTCATCCTAAATGCATCTACCTGCTTACGCTTTATACTTAAAACAACAGCAAGGTAGACTTCTCGTGGTCACAATTCTCTGATTATGACCTGTTCTTTTGACCTCTGCAG
Seq C2 exon
TTTTTTGCCACGTGTATATAACGGAGCACTCCTATATCAGTGTGAAGGCAAAAGTGTCGAGTACAGCCCAGGAGATCCTGAAGGTCGTGGCCGAGAAGCTGCAGCGTGCCGAAGAGGATCTGGCTCTGGTAGCCATTACATTCTCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041992:ENSMUST00000109691:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types